Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 78
Found at i:9885992 original size:23 final size:22
Alignment explanation
Indices: 9885934--9886034 Score: 67
Period size: 22 Copynumber: 4.3 Consensus size: 22
9885924 GAGTTAAGGG
9885934 TTCTACGCGGTCCTTTGGGACA
1 TTCTACGCGGTCCTTTGGGACA
* * * * *
9885956 ATCTATGTGATCCTTTGGGATA
1 TTCTACGCGGTCCTTTGGGACA
* *
9885978 TTTCTACGCGGTCCTTCAGGGAAAAA
1 -TTCTACGCGGTCCTT-TGGG--ACA
* *
9886004 TTCTATGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTTGGGAC--A
9886028 TTCTACG
1 TTCTACG
9886035 TGGCACTTCG
Statistics
Matches: 58, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
22 18 0.31
23 11 0.19
24 13 0.22
25 14 0.24
26 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.33
Consensus pattern (22 bp):
TTCTACGCGGTCCTTTGGGACA
Found at i:9886008 original size:25 final size:24
Alignment explanation
Indices: 9885979--9886051 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
9885969 TTTGGGATAT
9885979 TTCTACGCGGTCCTTCAGGGAAAAA
1 TTCTACGCGGTCCTTC-GGGAAAAA
* *
9886004 TTCTATGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGAAAAA
*
9886028 TTCTACGTGG-CACTTCGGTGAAAA
1 TTCTACGCGGTC-CTTCGG-GAAAA
9886052 TTATATGACC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 21 0.51
25 19 0.46
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGAAAAA
Found at i:9895599 original size:70 final size:69
Alignment explanation
Indices: 9895509--9895806 Score: 233
Period size: 70 Copynumber: 4.1 Consensus size: 69
9895499 TATATAATTA
* * * *
9895509 TTAAATTATAGTTAATAAATAAAATTAAGAATTATTTTTTCATTGAAAAATTAAAAATATATAAA
1 TTAAATTATAATTTA-AAATAAAATTAAGAATTATTCTTTCATTAAAAAATTAAAAATATATAAA
9895574 ATATT
65 ATATT
* *
9895579 TTAAATTATAATTTAGAAATAAAAATTAAGAACTACTTCTTTCATTAACAAAAATTAAAAATATG
1 TTAAATTATAATTTA-AAAT-AAAATTAAGAATTA-TTCTTTCATT-A-AAAAATTAAAAATATA
*** *
9895644 TATTTTTAAT
61 TA-AAATATT
* * * * * * * *
9895654 TTATAGTTAATAAATAAAAATAAAAATAAAAATTATTCTTCCATTAACAAAAATAAAACTATATA
1 TTA-AATT-ATAATTTAAAATAAAATTAAGAATTATTCTTTCATTAA-AAAATTAAAAATATATA
*
9895719 AACTATT
63 AAATATT
* *
9895726 ATAAATTAT-AGTTAATAA-AAAATTAAGAATTATTTCTTTCATTAAAACAATCT-AAAATATAT
1 TTAAATTATAATTTAA-AATAAAATTAAGAATTA-TTCTTTCATTAAAA-AAT-TAAAAATATA-
*
9895788 TAAAACATT
61 TAAAATATT
*
9895797 GTAAATTATA
1 TTAAATTATA
9895807 TTCAACTATG
Statistics
Matches: 177, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
69 18 0.10
70 41 0.23
71 32 0.18
72 15 0.08
73 15 0.08
74 26 0.15
75 17 0.10
76 7 0.04
77 6 0.03
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (69 bp):
TTAAATTATAATTTAAAATAAAATTAAGAATTATTCTTTCATTAAAAAATTAAAAATATATAAAA
TATT
Found at i:9895600 original size:74 final size:71
Alignment explanation
Indices: 9895529--9895806 Score: 219
Period size: 71 Copynumber: 3.8 Consensus size: 71
9895519 GTTAATAAAT
* *
9895529 AAAATTAAGAATTATTTTTTCATTGAAAAATTAAAAATATATAAAATATTTTAAATTATAATTTA
1 AAAATTAAGAATTATTCTTTCATTAAAAAATTAAAAATATATAAAATATTTTAAATTATAATTTA
9895594 GAAAT-A
66 -AAATAA
* * *** * *
9895600 AAAATTAAGAACTACTTCTTTCATTAACAAAAATTAAAAATATGTATTTTTAATTTATAGTTAAT
1 AAAATTAAGAATTA-TTCTTTCATT-A-AAAAATTAAAAATATATA-AAATATTTTA-AATT-AT
* *
9895665 AAATAAAAAT-A
60 AATTTAAAATAA
* * * * * * *
9895676 AAAA-TAAAAATTATTCTTCCATTAACAAAAATAAAACTATATAAACTATTATAAATTAT-AGTT
1 AAAATTAAGAATTATTCTTTCATTAA-AAAATTAAAAATATATAAAATATTTTAAATTATAATTT
9895739 --AATAA
65 AAAATAA
* *
9895744 AAAATTAAGAATTATTTCTTTCATTAAAACAATCT-AAAATATATTAAAACATTGTAAATTATA
1 AAAATTAAGAATTA-TTCTTTCATTAAAA-AAT-TAAAAATATA-TAAAATATTTTAAATTATA
9895807 TTCAACTATG
Statistics
Matches: 161, Mismatches: 32, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
67 3 0.02
68 5 0.03
69 12 0.07
70 22 0.14
71 32 0.20
72 15 0.09
73 15 0.09
74 26 0.16
75 13 0.08
76 12 0.07
77 6 0.04
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (71 bp):
AAAATTAAGAATTATTCTTTCATTAAAAAATTAAAAATATATAAAATATTTTAAATTATAATTTA
AAATAA
Found at i:9895672 original size:140 final size:141
Alignment explanation
Indices: 9895509--9895787 Score: 325
Period size: 144 Copynumber: 2.0 Consensus size: 141
9895499 TATATAATTA
* * * * *
9895509 TTAAATTATAGTTAATAAAT-AAAAT-TAAGAATTATTTTTTCATTGA-AAAATTAAAAATATAT
1 TTAAATTATAGTTAATAAATAAAAATATAAAAATTATTCTTCCATTAACAAAAATAAAAATATAT
* *
9895571 AAAATATTTTAAATTATAATTTAGAAATAAAAATTAAGAACTACTTCTTTCATTAACAAAAAT-T
66 AAAATATTATAAATTAT-AGTTA-AAA-AAAAATTAAGAACTACTTCTTTCATTAA-AAAAATCT
9895635 AAAA-ATATGTATTT
127 AAAATATATGTATTT
* *
9895649 TTAATTTATAGTTAATAAATAAAAATAAAAATAAAAATTATTCTTCCATTAACAAAAATAAAACT
1 TTAAATTATAGTTAATAAATAAAAAT----ATAAAAATTATTCTTCCATTAACAAAAATAAAAAT
* * * * *
9895714 ATATAAACTATTATAAATTATAGTTAATAAAAAATTAAGAATTATTTCTTTCATTAAAACAATCT
62 ATATAAAATATTATAAATTATAGTTAAAAAAAAATTAAGAACTACTTCTTTCATTAAAAAAATCT
9895779 AAAATATAT
127 AAAATATAT
9895788 TAAAACATTG
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
140 19 0.16
141 5 0.04
143 5 0.04
144 31 0.27
145 6 0.05
146 21 0.18
147 29 0.25
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (141 bp):
TTAAATTATAGTTAATAAATAAAAATATAAAAATTATTCTTCCATTAACAAAAATAAAAATATAT
AAAATATTATAAATTATAGTTAAAAAAAAATTAAGAACTACTTCTTTCATTAAAAAAATCTAAAA
TATATGTATTT
Found at i:9895791 original size:20 final size:20
Alignment explanation
Indices: 9895766--9895808 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9895756 TATTTCTTTC
9895766 ATTAAAACAATCTAAAATAT
1 ATTAAAACAATCTAAAATAT
* * *
9895786 ATTAAAACATTGTAAATTAT
1 ATTAAAACAATCTAAAATAT
9895806 ATT
1 ATT
9895809 CAACTATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTAAAACAATCTAAAATAT
Found at i:9896967 original size:173 final size:174
Alignment explanation
Indices: 9896674--9897034 Score: 607
Period size: 173 Copynumber: 2.0 Consensus size: 174
9896664 TTCAACCTAC
9896674 TTAAGATATCGGTTTTATTTTATTATAGTGGACAATGTACTCTTAATATATCATCAACTTTATTT
1 TTAAGATATCGGTTTTATTTTATTATAGTGGACAATGTACTCTTAATATATCATCAACTTTATTT
9896739 TTGATTTCATTATTGTGTATTTTGTAAATGTTAATGCTCCACCCCCG-ACATATATATAAGGGTA
66 TTGATTTCATTATTGTGTATTTTGTAAATGTTAATGCTCCACCCCCGAACATATATATAAGGGTA
* * *
9896803 GGATTTAATTACACTTATTGTAAAATTTTTAGTTTTACATATTT
131 GGATCTAATTACACTTATTGCAAAACTTTTAGTTTTACATATTT
*
9896847 TTAAGATATCGGTTTTATTTTATTATAGTGGACAATGTACTCTTATTATATCATCAACTTTATTT
1 TTAAGATATCGGTTTTATTTTATTATAGTGGACAATGTACTCTTAATATATCATCAACTTTATTT
*
9896912 TTGATTTCATTATTGTGTATTTTGTAAATGTTAATGCTCCACCCCCGATATATATATATATATAT
66 TTGATTTCATTATTGTGTATTTTGTAAATGTTAATGCTCCACCCCCG------A-ACATATATAT
9896977 AAGGGTAGGATCTAATTACACTTATTGCAAAACTTTTAGTTTTACATATTT
124 AAGGGTAGGATCTAATTACACTTATTGCAAAACTTTTAGTTTTACATATTT
9897028 TTAAGAT
1 TTAAGAT
9897035 TATTGGATTA
Statistics
Matches: 175, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
173 111 0.63
181 64 0.37
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (174 bp):
TTAAGATATCGGTTTTATTTTATTATAGTGGACAATGTACTCTTAATATATCATCAACTTTATTT
TTGATTTCATTATTGTGTATTTTGTAAATGTTAATGCTCCACCCCCGAACATATATATAAGGGTA
GGATCTAATTACACTTATTGCAAAACTTTTAGTTTTACATATTT
Found at i:9897157 original size:19 final size:20
Alignment explanation
Indices: 9897133--9897183 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
9897123 AATGACCAAT
9897133 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
9897152 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
9897172 AAAATCGCAACG
1 AAAATCGCAACG
9897184 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:9897177 original size:20 final size:20
Alignment explanation
Indices: 9897133--9897450 Score: 165
Period size: 20 Copynumber: 15.6 Consensus size: 20
9897123 AATGACCAAT
* *
9897133 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
9897152 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
9897172 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
9897192 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
9897212 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
** *
9897233 AAGTTCGCAACGCAATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
9897256 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
9897276 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
9897296 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
9897316 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
9897339 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
9897359 ATAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
9897379 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * * *
9897399 AGAATCGTAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
9897419 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
9897439 AAAATCGCAACG
1 AAAATCGCAACG
9897451 TTAAAAAGAA
Statistics
Matches: 237, Mismatches: 50, Indels: 23
0.76 0.16 0.07
Matches are distributed among these distances:
19 17 0.07
20 179 0.76
21 13 0.05
23 28 0.12
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:9897309 original size:40 final size:40
Alignment explanation
Indices: 9897258--9897448 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
9897248 TTTAGAAGAA
* * *
9897258 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
9897298 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGA-TT-G-AGAG
* * *
9897341 AATCGCAATGCGACTGAGATAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
9897381 AATCGCAATGCGATTTATAGAATCGTAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
9897421 AATCGCAACGCGATTTAGAAAATCGCAA
1 AATCGCAATGCGATTGAGAGAATCGCAA
9897449 CGTTAAAAAG
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 91 0.72
41 3 0.02
42 1 0.01
43 31 0.25
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
Found at i:9897348 original size:83 final size:83
Alignment explanation
Indices: 9897237--9897395 Score: 255
Period size: 83 Copynumber: 1.9 Consensus size: 83
9897227 GCTTCCAAGT
* * * * *
9897237 TCGCAACGCAATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCAATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
9897302 GCAATGCGATTGAGAGAG
66 GCAATGCGATTGAGAGAG
* *
9897320 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGATAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCAATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
9897385 GCAATGCGATT
66 GCAATGCGATT
9897396 TATAGAATCG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (83 bp):
TCGCAACGCAATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAATGCGATTGAGAGAG
Found at i:9897477 original size:20 final size:20
Alignment explanation
Indices: 9897437--9897480 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9897427 AACGCGATTT
*
9897437 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
* *
9897457 AGAAAATCGCAATGGTCAAA
1 AGAAAATCGCAACGGTAAAA
9897477 AGAA
1 AGAA
9897481 TAGTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:9897568 original size:6 final size:6
Alignment explanation
Indices: 9897557--9897642 Score: 158
Period size: 6 Copynumber: 14.7 Consensus size: 6
9897547 AGACACGTAT
9897557 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
9897605 GACCAC GACCAC GACCAC GACCAC GACC-C GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
9897643 CGAGACGAGA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 10 0.12
6 70 0.88
ACGTcount: A:0.31, C:0.51, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:9897938 original size:20 final size:20
Alignment explanation
Indices: 9897913--9898027 Score: 185
Period size: 20 Copynumber: 5.8 Consensus size: 20
9897903 GATCTTATTA
* * *
9897913 AATCGCGTTGCGACTCTCTC
1 AATCGCATTGCGATTCTATC
* *
9897933 AATCGCATTGCGATTATATA
1 AATCGCATTGCGATTCTATC
9897953 AATCGCATTGCGATTCTATC
1 AATCGCATTGCGATTCTATC
9897973 AATCGCATTGCGATTCTATC
1 AATCGCATTGCGATTCTATC
9897993 AATCGCATTGCGATTCTATC
1 AATCGCATTGCGATTCTATC
9898013 AATCGCATTGCGATT
1 AATCGCATTGCGATT
9898028 TTCTTCTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (20 bp):
AATCGCATTGCGATTCTATC
Found at i:9898086 original size:21 final size:22
Alignment explanation
Indices: 9898037--9898091 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
9898027 TTTCTTCTAA
9898037 ATCGCGTTGCGAACTTGGAAGC
1 ATCGCGTTGCGAACTTGGAAGC
9898059 ATCGCGTTGCGAACTTGGAAGC
1 ATCGCGTTGCGAACTTGGAAGC
9898081 -TCGCGTTGCGA
1 ATCGCGTTGCGA
9898092 TTTTCTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (22 bp):
ATCGCGTTGCGAACTTGGAAGC
Found at i:9898109 original size:20 final size:20
Alignment explanation
Indices: 9898084--9898137 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
9898074 TGGAAGCTCG
*
9898084 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
9898104 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
9898124 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
9898138 GAATCGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:9898148 original size:20 final size:20
Alignment explanation
Indices: 9898124--9898174 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
9898114 TTCTTTTTAA
9898124 CGTTGCGATTTTCTGA-ATCG
1 CGTTGCGATTTT-TGATATCG
*
9898144 TGTTGCGA-TTTTGATATCG
1 CGTTGCGATTTTTGATATCG
9898163 CGTTGCGATTTT
1 CGTTGCGATTTT
9898175 ATTGGTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 14 0.52
20 10 0.37
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTTGATATCG
Found at i:9905384 original size:21 final size:20
Alignment explanation
Indices: 9905357--9905405 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
9905347 TTTCTGTCTC
*
9905357 TGTGTGCTGGTATGAATTTT
1 TGTGTGCTGGTATGAATGTT
*
9905377 TGGTGTGCTGGTTTGAATGTT
1 T-GTGTGCTGGTATGAATGTT
9905398 TGTGTGCT
1 TGTGTGCT
9905406 TATCTCGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.10, C:0.06, G:0.35, T:0.49
Consensus pattern (20 bp):
TGTGTGCTGGTATGAATGTT
Found at i:9905982 original size:18 final size:18
Alignment explanation
Indices: 9905959--9905993 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9905949 AAGTATAAGG
9905959 ATTTATTTA-AAATTAATC
1 ATTTA-TTAGAAATTAATC
9905977 ATTTATTAGAAATTAAT
1 ATTTATTAGAAATTAAT
9905994 TATAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTATTAGAAATTAATC
Found at i:9907093 original size:18 final size:18
Alignment explanation
Indices: 9907070--9907114 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
9907060 TGACACTTAA
9907070 ATTTGTTTCTCTGTGTTC
1 ATTTGTTTCTCTGTGTTC
9907088 ATTTGTTTCTCTGTGTTC
1 ATTTGTTTCTCTGTGTTC
9907106 ATTTGTTTC
1 ATTTGTTTC
9907115 CGGTTCGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.07, C:0.16, G:0.16, T:0.62
Consensus pattern (18 bp):
ATTTGTTTCTCTGTGTTC
Found at i:9907365 original size:22 final size:21
Alignment explanation
Indices: 9907322--9907365 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
9907312 AAATAGAAGC
*
9907322 AATTCAAAAGTTTAATGATTA
1 AATTCAAAAGTTTAATCATTA
* *
9907343 AATTCAAAAATTTTAATCTTTA
1 AATTC-AAAAGTTTAATCATTA
9907365 A
1 A
9907366 TGATCAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (21 bp):
AATTCAAAAGTTTAATCATTA
Found at i:9909085 original size:14 final size:14
Alignment explanation
Indices: 9909038--9909087 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
9909028 ATTTTAATAA
*
9909038 TTAATTAAATATGATT
1 TTAATTAAAT-TTA-T
9909054 TTAA-TATAATTT-T
1 TTAATTA-AATTTAT
9909067 TTAATTAAATTTAT
1 TTAATTAAATTTAT
9909081 TTAATTA
1 TTAATTA
9909088 GTAAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 10 0.33
14 10 0.33
15 3 0.10
16 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTAATTAAATTTAT
Found at i:9909557 original size:60 final size:60
Alignment explanation
Indices: 9909445--9909572 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
9909435 ATAATAGAGT
* ** * **
9909445 GACCATTTTGTAACTTTTAATAGTCAGGGGACTCAACAAAGTAATGCTCTATAATCAAAG
1 GACCATTTCGTAACTTTTAATAGTCAAAGGACTCAACAAAATAAAACTCTATAATCAAAG
* * * *
9909505 GACCGTTTCGTAACTTTTAATAGTCAAAGGACTCAACAAAATAGAAAC-CTATAGTCGATG
1 GACCATTTCGTAACTTTTAATAGTCAAAGGACTCAACAAAATA-AAACTCTATAATCAAAG
9909565 GACCATTT
1 GACCATTT
9909573 GTGTATTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (60 bp):
GACCATTTCGTAACTTTTAATAGTCAAAGGACTCAACAAAATAAAACTCTATAATCAAAG
Found at i:9914410 original size:24 final size:24
Alignment explanation
Indices: 9914383--9914455 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
9914373 ACATGCATAA
*
9914383 GATATAT-ATATGTTCATGTGATAT
1 GATATATGATATG-ACATGTGATAT
*
9914407 GATATGTGATATGACATGTGATAT
1 GATATATGATATGACATGTGATAT
* *
9914431 GAGAACATGATATGA-A-GTGATAT
1 GA-TATATGATATGACATGTGATAT
9914454 GA
1 GA
9914456 GATACATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
23 9 0.21
24 19 0.45
25 14 0.33
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (24 bp):
GATATATGATATGACATGTGATAT
Found at i:9914415 original size:12 final size:12
Alignment explanation
Indices: 9914397--9914432 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
9914387 TATATATGTT
9914397 CATGTGATATGA
1 CATGTGATATGA
*
9914409 TATGTGATATGA
1 CATGTGATATGA
9914421 CATGTGATATGA
1 CATGTGATATGA
9914433 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:9914454 original size:23 final size:26
Alignment explanation
Indices: 9914397--9914465 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
9914387 TATATATGTT
**
9914397 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
9914421 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
9914446 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
9914466 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:9914595 original size:15 final size:15
Alignment explanation
Indices: 9914577--9914609 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9914567 GAGGGTATAA
9914577 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
9914592 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
9914607 TAG
1 TAG
9914610 GAGTCCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:9921220 original size:12 final size:12
Alignment explanation
Indices: 9921202--9921237 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9921192 TATATATGTT
9921202 CATGTGATATGA
1 CATGTGATATGA
*
9921214 TATGTGATATGA
1 CATGTGATATGA
*
9921226 CCTGTGATATGA
1 CATGTGATATGA
9921238 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:9921421 original size:18 final size:15
Alignment explanation
Indices: 9921382--9921414 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
9921372 GAGGGTATAA
9921382 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
9921397 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
9921412 TAG
1 TAG
9921415 GAGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:9929064 original size:56 final size:56
Alignment explanation
Indices: 9929000--9929556 Score: 871
Period size: 56 Copynumber: 9.9 Consensus size: 56
9928990 ATAGTTCCTA
* * *
9929000 TACGGTTATTCATCAACTCATGATGAATTCCATAGATTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* *
9929056 TATGGTTATTCATCAATTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * *
9929112 TACTGTTATTCATCAACTCATGCTGAATTCCGTGGTTTTGCACACATAGTGCCTTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* *
9929168 TATGGTTATTCATCAACTCATGATGAATTCCATGGTTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * * *
9929224 TACGGTTATTCATCAACTCATGATAAAATCCGTAGTTTTGAACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
**
9929280 TACGGTTATTCATCAACTCATGATGAATTATGTGGTTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * * *
9929336 TAAGGTTATTCATCAACTCATGATGAATTTCTTGGTTTTGCACACATAGTGCCCTA
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
*
9929392 TACGGTTATTCATGAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* *
9929448 TACAGTTATTCATCAACTCATGATGAATTCTGTGGTTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * **
9929504 TACGTTTATTCATCAACTCATGATGATTTCCGTGGTTTTGCACATTTAGTGCC
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCC
9929557 TATTTGGTAA
Statistics
Matches: 455, Mismatches: 46, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 455 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (56 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
Found at i:9929906 original size:20 final size:22
Alignment explanation
Indices: 9929881--9929928 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9929871 TCAATAGTAT
9929881 CGATACTACTAT-C-ATGGCAC
1 CGATACTACTATACTATGGCAC
* *
9929901 CGATACTTCTATACTATGGTAC
1 CGATACTACTATACTATGGCAC
9929923 CGATAC
1 CGATAC
9929929 CCCCTTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.46
21 1 0.04
22 12 0.50
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (22 bp):
CGATACTACTATACTATGGCAC
Found at i:9930076 original size:94 final size:95
Alignment explanation
Indices: 9929901--9930099 Score: 269
Period size: 94 Copynumber: 2.1 Consensus size: 95
9929891 ATCATGGCAC
* * * ** * *
9929901 CGATACTTCTATACTATGGTACCGATACCCCCTTTTGGTATCGATACCCAATTTAGGTTCGATGT
1 CGATACTACCATACTATGATACCGATACCCCCTTCCGATATCGATACCCAATTTAGATTCGATGT
* *
9929966 TGCATGGTATCGATACCCTTGCCATGGTAT
66 TGCATGATATCGATACCCTTACCATGGTAT
9929996 CGATACTACCATACTATGATACCGATA-CCCCTTCCGATATCGATA-CCAATTTTAGATTCGATG
1 CGATACTACCATACTATGATACCGATACCCCCTTCCGATATCGATACCCAA-TTTAGATTCGATG
*
9930059 TT-TATTGATATCGATACCCTTACCATGGTAT
65 TTGCA-TGATATCGATACCCTTACCATGGTAT
9930090 CGATACTACC
1 CGATACTACC
9930100 TCGCTGGTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 5 0.05
94 63 0.68
95 24 0.26
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (95 bp):
CGATACTACCATACTATGATACCGATACCCCCTTCCGATATCGATACCCAATTTAGATTCGATGT
TGCATGATATCGATACCCTTACCATGGTAT
Found at i:9934733 original size:56 final size:56
Alignment explanation
Indices: 9934652--9935099 Score: 664
Period size: 56 Copynumber: 8.0 Consensus size: 56
9934642 TTTATTAAGA
* * * * * *
9934652 TGCACACATAGT-TCCTATACGATTATTCATCAACTCATGATGAGTTCCGTAGATT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* * * *
9934707 TGGACACATAGTGCCCTGTACGATTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* * *
9934763 TGCACACATAGTGCCCTGTACAGTTATTCATCAACTCATGATAAATTCTGTGGTTT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* * *
9934819 TGCACACATAGTGCCTTGTACGGTTATTCATCAACTTATGATGAATTCCGTAGTTT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* *
9934875 TACACACATAGTGCCCTGTACGGTTATTAATCAACTCATGATGAATTCCGTGGTTT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* *
9934931 TACACACATAGTGCCCTGTATGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* * *
9934987 TGCAAACATAGTGCCATGTACGGTTATTCATCAACTCATGATGAATCCCGTGGTTT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* *
9935043 TGTACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
1 TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
9935099 T
1 T
9935100 TGATAACTCT
Statistics
Matches: 358, Mismatches: 34, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
55 11 0.03
56 347 0.97
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (56 bp):
TGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
Found at i:9947065 original size:56 final size:56
Alignment explanation
Indices: 9946978--9947164 Score: 259
Period size: 56 Copynumber: 3.3 Consensus size: 56
9946968 CAAGCGATCA
* *
9946978 GTTTTGCACACATAGTGCCATGTACGGTTATTCATTAACTCATGATGAATTCTGTG
1 GTTTTGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTG
* * ** *
9947034 GTTTTGCACTCTTAGTGCCCTGTACAATTATTCATCAACTCATGATGAATT-TCATG
1 GTTTTGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GTG
* *
9947090 GTTTTACACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCTGCG
1 GTTTTGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTG
**
9947146 GTTTTGCACATTTAGTGCC
1 GTTTTGCACACATAGTGCC
9947165 TATTTGGTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
55 1 0.01
56 110 0.98
57 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (56 bp):
GTTTTGCACACATAGTGCCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTG
Found at i:9947601 original size:20 final size:20
Alignment explanation
Indices: 9947576--9947633 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
9947566 TTTGATGTTG
*
9947576 CATGGTATCGATACCCTTAC
1 CATGGTATCGATACCCATAC
9947596 CATGGTATCGATACTACCATAC
1 CATGGTATCGATAC--CCATAC
* *
9947618 TATGGTACCGATACCC
1 CATGGTATCGATACCC
9947634 CTTCCGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 16 0.48
22 17 0.52
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (20 bp):
CATGGTATCGATACCCATAC
Found at i:9947687 original size:94 final size:95
Alignment explanation
Indices: 9947501--9947707 Score: 276
Period size: 94 Copynumber: 2.2 Consensus size: 95
9947491 GTACTATTAT
* * * * * *
9947501 CATGGTACCGATACTTCTATACTATGGTACCGATACCCCCTTATGGTATCAATACCCAATTTAGG
1 CATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTACGGGATCAATACCCAATTTAGA
* * *
9947566 TTTGATGTTGCATGGTATCGATACCCTTAC
66 TTCGATGTTACATGATATCGATACCCTTAC
* *
9947596 CATGGTATCGATACTACCATACTATGGTACCGATA-CCCCTTCCGGGATCTATA-CCAATTTTAG
1 CATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTACGGGATCAATACCCAA-TTTAG
9947659 ATTCGATGTTTAC-TGATATCGATACCCTTAC
65 ATTCGATG-TTACATGATATCGATACCCTTAC
9947690 CATGGTATCGATACTACC
1 CATGGTATCGATACTACC
9947708 TCGCTGGTAT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
93 4 0.04
94 60 0.61
95 35 0.35
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (95 bp):
CATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTACGGGATCAATACCCAATTTAGA
TTCGATGTTACATGATATCGATACCCTTAC
Found at i:9952262 original size:21 final size:22
Alignment explanation
Indices: 9952222--9952268 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9952212 ATTAAATAAT
* **
9952222 CAAATTAAAATAAATTCAAA-A
1 CAAAATAAAATAAAAGCAAATA
9952243 CAAAATAAAATAAAAGCAAATA
1 CAAAATAAAATAAAAGCAAATA
9952265 CAAA
1 CAAA
9952269 TCCATACGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.17
Consensus pattern (22 bp):
CAAAATAAAATAAAAGCAAATA
Found at i:9964754 original size:58 final size:59
Alignment explanation
Indices: 9964688--9964834 Score: 197
Period size: 59 Copynumber: 2.5 Consensus size: 59
9964678 TTCCCATATG
* * * *
9964688 GAAATTCATCCACTTAGTATGAATTTCTTATCCT-TTAGCACATAAAGTGACCAATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATGTCAGCACACAAAGTGACCAATACA
* * * * *
9964746 GAAATTCATACACTTAGTATAAATTTCTTATCATGTCAGCGCACGAAGTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATGTCAGCACACAAAGTGACCAATACA
*
9964805 GAAATTCAAACACTTAGTATGAATTTCTTA
1 GAAATTCATACACTTAGTATGAATTTCTTA
9964835 ACATTTTACA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 31 0.40
59 46 0.60
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATGTCAGCACACAAAGTGACCAATACA
Found at i:9969344 original size:2 final size:2
Alignment explanation
Indices: 9969337--9969392 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
9969327 TTGTTGTACA
9969337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9969379 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
9969393 CATCCCTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9969568 original size:80 final size:80
Alignment explanation
Indices: 9969426--9969662 Score: 302
Period size: 78 Copynumber: 3.0 Consensus size: 80
9969416 TAAAATTTCT
* * ** * * *
9969426 TTATTCTCTTACTCAACAGTGTTTAA-CGTTCGTCTAACTGGCATAATTGATACCTTTATGCCAA
1 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
9969490 TACACAGTTAGGCCA
66 TGCACAGTTAGGCCA
* *
9969505 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAATTGGCATAACTGACACCTTTCTGCCAA
1 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
9969570 TTGCACAGCTAGGCCA
66 -TGCACAGTTAGGCCA
* *
9969586 -T-TT-TTTTACTCAAAGATACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAT
1 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA-
*
9969648 ATGCATAGTTAGGCC
65 ATGCACAGTTAGGCC
9969663 TCAAAGACAC
Statistics
Matches: 138, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
78 66 0.48
79 25 0.18
80 34 0.25
81 13 0.09
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (80 bp):
TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
TGCACAGTTAGGCCA
Found at i:9969684 original size:68 final size:68
Alignment explanation
Indices: 9969594--9969784 Score: 258
Period size: 68 Copynumber: 2.8 Consensus size: 68
9969584 CATTTTTTTA
* ** * * *
9969594 CTCAAAGATACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCATATGCA-TAGTT
1 CTCAAAGACACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCAGT-GTT
*
9969658 AGGC
65 AAGC
* * * *
9969662 CTCAAAGACACTTAGTCTTTCATCTATCTGTCATAAATGAGACCTTTATGTCATATGCAGTGTTA
1 CTCAAAGACACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCAGTGTTA
9969727 AGC
66 AGC
*
9969730 CTCAAAGACACTTAGTCTTTCATCTAACTGGCATAAACGACACCTTTCTGTCATA
1 CTCAAAGACACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATA
9969785 CACTTAGTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 105 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (68 bp):
CTCAAAGACACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCAGTGTTA
AGC
Found at i:9970301 original size:95 final size:96
Alignment explanation
Indices: 9970173--9970362 Score: 251
Period size: 95 Copynumber: 2.0 Consensus size: 96
9970163 GATACTTCTA
* * *
9970173 TACTATGGTATCGATACCCCCTTCGGGTATCGATACCAAAAGTAGG-TTCGATGTTAATTGGTAT
1 TACTAGGGTATCGATACCCCCTTCCGGTATCGATACCAAAA-TAGGATTCAATGTTAATTGGTAT
9970237 CGATA-CCCTTACCATGATATCGATACTACCC
65 CGATACCCCTTACCATGATATCGATACTACCC
* * **
9970268 TACTAGGGTATCGATA-CCCCTTACCGGTATCGATACCAAAATTGGATTTAATGTTTCTTGGTAT
1 TACTAGGGTATCGATACCCCCTT-CCGGTATCGATACCAAAATAGGATTCAATGTTAATTGGTAT
* * *
9970332 CGATACCCCTTATCTTGGTATCGATACTACC
65 CGATACCCCTTACCATGATATCGATACTACC
9970363 TCATCGGTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 9 0.11
95 51 0.62
96 22 0.27
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (96 bp):
TACTAGGGTATCGATACCCCCTTCCGGTATCGATACCAAAATAGGATTCAATGTTAATTGGTATC
GATACCCCTTACCATGATATCGATACTACCC
Found at i:9970349 original size:21 final size:21
Alignment explanation
Indices: 9970323--9970399 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
9970313 ATTTAATGTT
9970323 TCTTGGTATCGATACCCCTTA
1 TCTTGGTATCGATACCCCTTA
* *
9970344 TCTTGGTATCGATACTACCTCA
1 TCTTGGTATCGATAC-CCCTTA
*
9970366 TC--GGTATCAATACCCCTTA
1 TCTTGGTATCGATACCCCTTA
*
9970385 TCATGGTATCGATAC
1 TCTTGGTATCGATAC
9970400 TAGTCATCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.13
20 10 0.21
21 25 0.53
22 6 0.13
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (21 bp):
TCTTGGTATCGATACCCCTTA
Found at i:9970373 original size:20 final size:21
Alignment explanation
Indices: 9970348--9970401 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
9970338 CCCTTATCTT
9970348 GGTATCGATACTACCTCATC-
1 GGTATCGATACTACCTCATCA
* * *
9970368 GGTATCAATAC-CCCTTATCA
1 GGTATCGATACTACCTCATCA
9970388 TGGTATCGATACTA
1 -GGTATCGATACTA
9970402 GTCATCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 6 0.23
20 10 0.38
21 10 0.38
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (21 bp):
GGTATCGATACTACCTCATCA
Found at i:9973646 original size:17 final size:18
Alignment explanation
Indices: 9973610--9973649 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
9973600 AAAGAAGAAC
9973610 AAAAGAAGAAATGAAAAG
1 AAAAGAAGAAATGAAAAG
* *
9973628 AAAAGAA-AATTGCAAAG
1 AAAAGAAGAAATGAAAAG
9973645 AAAAG
1 AAAAG
9973650 TTGAAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAGAAATGAAAAG
Found at i:9978372 original size:18 final size:18
Alignment explanation
Indices: 9978349--9978400 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
9978339 ACGTAGAATT
*
9978349 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
*
9978367 TGTCCCGAAGGACAACTA
1 TGTCCCGAAGGACCACTA
9978385 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
9978401 ATATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:9979622 original size:20 final size:22
Alignment explanation
Indices: 9979597--9979638 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9979587 CACTTCTTAA
9979597 AATCATC-TTATATTC-ATATC
1 AATCATCATTATATTCAATATC
*
9979617 AATCATCATTATCTTCAATATC
1 AATCATCATTATATTCAATATC
9979639 CCAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (22 bp):
AATCATCATTATATTCAATATC
Found at i:9981373 original size:20 final size:20
Alignment explanation
Indices: 9981348--9981398 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
9981338 AATTGTAGGA
* *
9981348 GGTATCGATATTGAATTGGG
1 GGTATCGATACTGAAATGGG
9981368 GGTATCGATACTGAAATGGG
1 GGTATCGATACTGAAATGGG
9981388 GGTATCGATAC
1 GGTATCGATAC
9981399 CAATGGTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.29
Consensus pattern (20 bp):
GGTATCGATACTGAAATGGG
Found at i:9981496 original size:22 final size:21
Alignment explanation
Indices: 9981471--9981522 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
9981461 ACCGAAGTGG
9981471 GTATCGATACCA-TAGAAGGGAA
1 GTATCGATACCAGTAG-AGGG-A
* *
9981493 GTATCGGTA-CAGTAGTGGGA
1 GTATCGATACCAGTAGAGGGA
9981513 GTATCGATAC
1 GTATCGATAC
9981523 TAATGTGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.36
21 5 0.20
22 11 0.44
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (21 bp):
GTATCGATACCAGTAGAGGGA
Found at i:9983650 original size:20 final size:22
Alignment explanation
Indices: 9983601--9983654 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
9983591 ACTAAGAGAA
9983601 AGGTATCGATACCACAGTATAG
1 AGGTATCGATACCACAGTATAG
* **
9983623 AAGTATCGATACCATGGTA-AG
1 AGGTATCGATACCACAGTATAG
9983644 -GGTATCGATAC
1 AGGTATCGATAC
9983655 TATTGAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 16 0.57
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (22 bp):
AGGTATCGATACCACAGTATAG
Found at i:9984219 original size:81 final size:81
Alignment explanation
Indices: 9984116--9984286 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 81
9984106 ACTATTCTAA
* * *
9984116 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTATGCATTTAGCAAAAATGTATCAATTATGCCAGTTAGATGAA
*
9984181 AGGTTAAATACCTTTG
66 AAGTTAAATACCTTTG
* * * * * *
9984197 AGTAAAAGATTAGTGGTCTAGCTATGTATTTAGTAGAAATGTATCAATTATTCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTATGCATTTAGCAAAAATGTATCAATTATGCCAGTTAGATGAA
9984262 AAGTTAAATACCTTTG
66 AAGTTAAATACCTTTG
*
9984278 GGTAAAAGA
1 AGTAAAAGA
9984287 CTAAATACTT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTATGCATTTAGCAAAAATGTATCAATTATGCCAGTTAGATGAA
AAGTTAAATACCTTTG
Found at i:9984851 original size:29 final size:29
Alignment explanation
Indices: 9984818--9984874 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9984808 ATACGTTTGT
* *
9984818 GGTTTTAAAATTGA-AACAAAATTTTTAAG
1 GGTTTTAAAA-TGATAAAAAAAGTTTTAAG
*
9984847 GGTTTTCAAATGATAAAAAAAGTTTTAA
1 GGTTTTAAAATGATAAAAAAAGTTTTAA
9984875 AAAGTGATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.37
Consensus pattern (29 bp):
GGTTTTAAAATGATAAAAAAAGTTTTAAG
Found at i:9989349 original size:81 final size:81
Alignment explanation
Indices: 9989230--9989400 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 81
9989220 ACTATTCTAA
** * * *
9989230 AGTAAAAGATTAATGTTCTAGTTGTGCATTTGGCAGAAAGGTGCCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATTATGCCAGTAAGATGAA
9989295 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
9989311 AGTAAAAGATTAATGGCCTAGCTGTGTATTTGGTAGAAATGTGTCAATTATGCCAGTAAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATTATGCCAGTAAGATGAA
9989376 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
9989392 GGTAAAAGA
1 AGTAAAAGA
9989401 CTAAATGCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATTATGCCAGTAAGATGAA
AGGTTAAATACCTTTG
Found at i:9989419 original size:81 final size:82
Alignment explanation
Indices: 9989230--9989424 Score: 218
Period size: 81 Copynumber: 2.4 Consensus size: 82
9989220 ACTATTCTAA
* ** * * * *
9989230 AGTAAAAGATTAATGTTCTAGTTGTG-CATTTGGCAGAAAGGTGCCAATTATGTCAGTTAGATGA
1 AGTAAAAGATAAATGGCCTAGATGTGTAATTTGGCAGAAAGGTGCCAATTATGCCAGTAAGATGA
9989294 AAGGTTAAATACCTTTG
66 AAGGTTAAATACCTTTG
* * * * *
9989311 AGTAAAAGATTAATGGCCTAGCTGTGT-ATTTGGTAGAAATGTGTCAATTATGCCAGTAAGATGA
1 AGTAAAAGATAAATGGCCTAGATGTGTAATTTGGCAGAAAGGTGCCAATTATGCCAGTAAGATGA
9989375 AAGGTTAAATACCTTTG
66 AAGGTTAAATACCTTTG
* *
9989392 GGTAAAAGACTAAAT-GCTTA-ATAGTGTAATTTG
1 AGTAAAAGA-TAAATGGCCTAGAT-GTGTAATTTG
9989425 ACATAAATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
80 1 0.01
81 88 0.90
82 9 0.09
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (82 bp):
AGTAAAAGATAAATGGCCTAGATGTGTAATTTGGCAGAAAGGTGCCAATTATGCCAGTAAGATGA
AAGGTTAAATACCTTTG
Found at i:9996234 original size:24 final size:24
Alignment explanation
Indices: 9996183--9996273 Score: 114
Period size: 23 Copynumber: 3.9 Consensus size: 24
9996173 GTCAAGGGTT
*
9996183 CTATGTGGTCCTTCAGGA-AAAAA
1 CTATGTGGTCCTTCGGGACAAAAA
* * *
9996206 TTATGTGGTCTTTCGGGACAAAAC
1 CTATGTGGTCCTTCGGGACAAAAA
* *
9996230 CTATGTGGTCCTTCGAGAC-AAAT
1 CTATGTGGTCCTTCGGGACAAAAA
9996253 CTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCGGGACAA
9996274 TTATGTGGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
23 36 0.63
24 21 0.37
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (24 bp):
CTATGTGGTCCTTCGGGACAAAAA
Found at i:9996258 original size:47 final size:47
Alignment explanation
Indices: 9996183--9996273 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 47
9996173 GTCAAGGGTT
*
9996183 CTATGTGGTCCTTCAGGAAAAAATTATGTGGTCTTTCGGGACAAAAC
1 CTATGTGGTCCTTCAGGAAAAAATTATGTGGTCCTTCGGGACAAAAC
*
9996230 CTATGTGGTCCTTC--GAGACAAATCTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCAGGA-AAAAAT-TATGTGGTCCTTCGGGACAA
9996274 TTATGTGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 2 0.05
46 5 0.12
47 33 0.82
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (47 bp):
CTATGTGGTCCTTCAGGAAAAAATTATGTGGTCCTTCGGGACAAAAC
Found at i:10008597 original size:2 final size:2
Alignment explanation
Indices: 10008592--10008621 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10008582 TGTACTTAAC
10008592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10008622 GCACACACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10008726 original size:5 final size:5
Alignment explanation
Indices: 10008707--10008749 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
10008697 ATAATCAAAT
* *
10008707 TAAAA TAAAT TCAAAA CAAAA TAAAA TAAAA TAAAA TACAAA T
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TA-AAA T
10008750 CTAGACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 25 0.78
6 7 0.22
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:10008749 original size:21 final size:20
Alignment explanation
Indices: 10008702--10008749 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
10008692 ATTAAATAAT
* *
10008702 CAAATTAAAATAAATTCAAAA
1 CAAA-TAAAATAAAATAAAAA
10008723 CAAAATAAAATAAAATAAAATA
1 C-AAATAAAATAAAATAAAA-A
10008745 CAAAT
1 CAAAT
10008750 CTAGACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
CAAATAAAATAAAATAAAAA
Found at i:10012558 original size:14 final size:14
Alignment explanation
Indices: 10012539--10012565 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10012529 TATCGAATAT
10012539 ACTTAGAAAATCAA
1 ACTTAGAAAATCAA
10012553 ACTTAGAAAATCA
1 ACTTAGAAAATCA
10012566 TTCGTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (14 bp):
ACTTAGAAAATCAA
Found at i:10013026 original size:16 final size:16
Alignment explanation
Indices: 10013005--10013037 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10012995 AATATCTAAA
*
10013005 ACAAATTTAAACATCC
1 ACAAATTCAAACATCC
10013021 ACAAATTCAAACATCC
1 ACAAATTCAAACATCC
10013037 A
1 A
10013038 TAAGCATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAATTCAAACATCC
Found at i:10015015 original size:22 final size:21
Alignment explanation
Indices: 10014965--10015015 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10014955 ACCCCGTGGA
* *
10014965 GGGTATCGGTTCCCTCAATGG
1 GGGTATCGGTACCCTCAAAGG
* *
10014986 GGGAATCGGTACCCATGAAAGG
1 GGGTATCGGTACCC-TCAAAGG
10015008 GGGTATCG
1 GGGTATCG
10015016 ATTCCTAGCG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.22, C:0.20, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGTATCGGTACCCTCAAAGG
Found at i:10018869 original size:22 final size:21
Alignment explanation
Indices: 10018827--10018866 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10018817 AAGACTATTT
10018827 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
10018848 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
10018867 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:10021065 original size:15 final size:15
Alignment explanation
Indices: 10021045--10021074 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10021035 TGTATCGAAT
10021045 ATACTTAGAAAATCA
1 ATACTTAGAAAATCA
10021060 ATACTTAGAAAATCA
1 ATACTTAGAAAATCA
10021075 TTCGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
ATACTTAGAAAATCA
Found at i:10021202 original size:23 final size:23
Alignment explanation
Indices: 10021176--10021253 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
10021166 CTTGTTTAAC
10021176 GTTTATTTAGCTTTCATGAATGT
1 GTTTATTTAGCTTTCATGAATGT
* * *
10021199 GTTTGTTTCGCATTT-ACGAATGT
1 GTTTATTTAGC-TTTCATGAATGT
*
10021222 GTTCT-TTTAGCATTCATGAATGT
1 GTT-TATTTAGCTTTCATGAATGT
*
10021245 GTTCATTTA
1 GTTTATTTA
10021254 TATATTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
22 2 0.05
23 38 0.86
24 4 0.09
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (23 bp):
GTTTATTTAGCTTTCATGAATGT
Found at i:10021670 original size:23 final size:23
Alignment explanation
Indices: 10021644--10021728 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
10021634 TTAATGTTTG
*
10021644 TGAACATGTTCATTTAGCTTTCA
1 TGAACGTGTTCATTTAGCTTTCA
**
10021667 TGAACGTGTTTGTTTAGCATTT-A
1 TGAACGTGTTCATTTAGC-TTTCA
* * * *
10021690 CGAATGTGTTCTTTTAGCATTCA
1 TGAACGTGTTCATTTAGCTTTCA
*
10021713 TGAATGTGTTCATTTA
1 TGAACGTGTTCATTTA
10021729 TACATTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 2 0.04
23 45 0.90
24 3 0.06
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.46
Consensus pattern (23 bp):
TGAACGTGTTCATTTAGCTTTCA
Found at i:10021972 original size:38 final size:38
Alignment explanation
Indices: 10021909--10022065 Score: 161
Period size: 38 Copynumber: 4.1 Consensus size: 38
10021899 TTACATGAGC
* ** * * *
10021909 TTGTTCATGAACATAAATGAGCGAGTCAATAAACAAGT
1 TTGTTAATGAACATAAACAAACGAGTCGATAAACAAGA
* * *
10021947 TTGCTCATGAACATAAACAAACGAGTTGATAAACAAGA
1 TTGTTAATGAACATAAACAAACGAGTCGATAAACAAGA
** * *
10021985 TTGTTAATGAACATAAACAAATAAGTCGATAAACGAGC
1 TTGTTAATGAACATAAACAAACGAGTCGATAAACAAGA
* * * *
10022023 TTGTTAATGAGCATAAACAAATGAGTCGATAAACGAGC
1 TTGTTAATGAACATAAACAAACGAGTCGATAAACAAGA
10022061 TTGTT
1 TTGTT
10022066 TGTGGACATA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 103 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (38 bp):
TTGTTAATGAACATAAACAAACGAGTCGATAAACAAGA
Found at i:10023044 original size:17 final size:18
Alignment explanation
Indices: 10023001--10023046 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10022991 TGATTTAGAG
10023001 TTTAGGAATTTAGGGATT
1 TTTAGGAATTTAGGGATT
**
10023019 TTTAGGAATTTAGGTTTT
1 TTTAGGAATTTAGGGATT
10023037 TTTA-GAATTT
1 TTTAGGAATTT
10023047 TGTGGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (18 bp):
TTTAGGAATTTAGGGATT
Found at i:10023651 original size:13 final size:13
Alignment explanation
Indices: 10023633--10023664 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10023623 TAAAATTTAA
*
10023633 TAAAATTTAAAAT
1 TAAAATTAAAAAT
10023646 TAAAATTAAAAAT
1 TAAAATTAAAAAT
10023659 TAAAAT
1 TAAAAT
10023665 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATTAAAAAT
Found at i:10024594 original size:23 final size:23
Alignment explanation
Indices: 10024563--10024607 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10024553 AAGAGTTAGG
*
10024563 TTTAACTTT-TCTAATACTTTTTC
1 TTTAACTTTATATAA-ACTTTTTC
*
10024586 TTTAGCTTTATATAAACTTTTT
1 TTTAACTTTATATAAACTTTTT
10024608 ACCCAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAACTTTATATAAACTTTTTC
Found at i:10028224 original size:16 final size:17
Alignment explanation
Indices: 10028194--10028231 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10028184 AATTAATTTT
10028194 CTAAA-AAAATT-AAAA
1 CTAAACAAAATTAAAAA
*
10028209 CTAAACAAACTTAAAAA
1 CTAAACAAAATTAAAAA
10028226 CTAAAC
1 CTAAAC
10028232 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 5 0.25
17 10 0.50
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (17 bp):
CTAAACAAAATTAAAAA
Found at i:10033685 original size:15 final size:15
Alignment explanation
Indices: 10033665--10033703 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10033655 CTTATTTACT
10033665 TTATTTATTTT-CTCA
1 TTATTT-TTTTACTCA
*
10033680 TTATTTTTTTATTCA
1 TTATTTTTTTACTCA
10033695 TTATTTTTT
1 TTATTTTTT
10033704 ATATTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTTTACTCA
Found at i:10033708 original size:16 final size:15
Alignment explanation
Indices: 10033677--10033708 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10033667 ATTTATTTTC
10033677 TCATTATTTTTTTAT
1 TCATTATTTTTTTAT
10033692 TCATTATTTTTTATAT
1 TCATTATTTTTT-TAT
10033708 T
1 T
10033709 TTATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (15 bp):
TCATTATTTTTTTAT
Found at i:10033712 original size:14 final size:15
Alignment explanation
Indices: 10033679--10033724 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
10033669 TTATTTTCTC
10033679 ATTATTTTTT-TATT
1 ATTATTTTTTATATT
10033693 CATTATTTTTTATATT
1 -ATTATTTTTTATATT
*
10033709 -TTATATTTTAT-TT
1 ATTATTTTTTATATT
10033722 ATT
1 ATT
10033725 TTTAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 12 0.43
15 10 0.36
16 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTATTTTTTATATT
Found at i:10033715 original size:16 final size:15
Alignment explanation
Indices: 10033680--10033736 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
10033670 TATTTTCTCA
*
10033680 TTATTTTTT-TATTCA
1 TTATTTTTTATATT-T
10033695 TTATTTTTTATATTT
1 TTATTTTTTATATTT
10033710 TATATTTTATT-TATTT
1 T-TATTTT-TTATATTT
10033726 TTAATTTTTTA
1 TT-ATTTTTTA
10033737 AAATCCCCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 13 0.36
16 21 0.58
17 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTTTTTATATTT
Found at i:10040190 original size:55 final size:60
Alignment explanation
Indices: 10040093--10040228 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 60
10040083 AAAACTTTTA
* * * *
10040093 TATTTAGGATTTTTAGTTTGATTATTTTATTATTATTATTTATTTATGAATTAATTA-TT
1 TATTTAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
* *
10040152 TATTATAA-CTTTTTAGTTTGA-TATATTATTA-TA-T-TTTATATAGGAATTCATTATTT
1 TATT-TAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
10040208 TATTTAAGATTTTTAGTTTGA
1 TATTTAAGATTTTTAGTTTGA
10040229 GTCATTGTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
55 19 0.28
56 19 0.28
57 2 0.03
58 9 0.13
59 16 0.24
60 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (60 bp):
TATTTAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
Found at i:10042192 original size:3 final size:3
Alignment explanation
Indices: 10042184--10042216 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10042174 TATAATACAA
*
10042184 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10042217 TTAATAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10043571 original size:27 final size:27
Alignment explanation
Indices: 10043539--10043598 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
10043529 TTGGGTATGA
10043539 TTTTAGTTTTAAATGTTCTATGGAGAT
1 TTTTAGTTTTAAATGTTCTATGGAGAT
10043566 TTTTAGTTTTAAATGTTCTATGGAGAT
1 TTTTAGTTTTAAATGTTCTATGGAGAT
10043593 TTTTAG
1 TTTTAG
10043599 ATGTTAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
TTTTAGTTTTAAATGTTCTATGGAGAT
Found at i:10044434 original size:57 final size:57
Alignment explanation
Indices: 10044342--10044454 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
10044332 CTAGGTGAAC
* * * *
10044342 ATGTTCTATGGGAATAAATGATAATTTGAATAATGTTATATGAAACACTATGAGTAT
1 ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAACACTATGAGTAT
**
10044399 ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAATGCTATGAGTA
1 ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAACACTATGAGTA
10044455 AATCATCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (57 bp):
ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAACACTATGAGTAT
Found at i:10044478 original size:15 final size:15
Alignment explanation
Indices: 10044460--10044531 Score: 83
Period size: 15 Copynumber: 4.8 Consensus size: 15
10044450 GAGTAAATCA
10044460 TCTATGTAAATATGT
1 TCTATGTAAATATGT
*
10044475 TCTACGTGAAAT-TGT
1 TCTATGT-AAATATGT
*
10044490 TCTATGTGAATATGT
1 TCTATGTAAATATGT
* *
10044505 TCTATGTAAATGTGG
1 TCTATGTAAATATGT
*
10044520 TCTATGTGAATA
1 TCTATGTAAATA
10044532 AAAGATAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
14 3 0.06
15 40 0.85
16 4 0.09
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (15 bp):
TCTATGTAAATATGT
Found at i:10044494 original size:30 final size:30
Alignment explanation
Indices: 10044460--10044531 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
10044450 GAGTAAATCA
* *
10044460 TCTATGTAAATATGTTCTACGTGAAAT-TGT
1 TCTATGTGAATATGTTCTACGT-AAATGTGG
*
10044490 TCTATGTGAATATGTTCTATGTAAATGTGG
1 TCTATGTGAATATGTTCTACGTAAATGTGG
10044520 TCTATGTGAATA
1 TCTATGTGAATA
10044532 AAAGATAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (30 bp):
TCTATGTGAATATGTTCTACGTAAATGTGG
Found at i:10046230 original size:22 final size:23
Alignment explanation
Indices: 10046189--10046252 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
10046179 TATGATTGGT
*
10046189 CTTTGG-GCATACTCTAACAT-CA
1 CTTTGGTGCATATTCT-ACATGCA
10046211 CTTTGGTGCATATTCTACATGGCA
1 CTTTGGTGCATATTCTACAT-GCA
* *
10046235 TTTTGGTGCAAATTCTAC
1 CTTTGGTGCATATTCTAC
10046253 GCGGTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 10 0.28
23 8 0.22
24 18 0.50
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (23 bp):
CTTTGGTGCATATTCTACATGCA
Found at i:10046261 original size:24 final size:24
Alignment explanation
Indices: 10046212--10046262 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10046202 CTAACATCAC
* *
10046212 TTTGGTGCATATTCTACATGGCAT
1 TTTGGTGCAAATTCTACACGGCAT
* *
10046236 TTTGGTGCAAATTCTACGCGGTAT
1 TTTGGTGCAAATTCTACACGGCAT
10046260 TTT
1 TTT
10046263 TGACTGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (24 bp):
TTTGGTGCAAATTCTACACGGCAT
Found at i:10051218 original size:2 final size:2
Alignment explanation
Indices: 10051211--10051269 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
10051201 AAGATTGTTA
10051211 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10051253 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
10051270 ATCTATCGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10052608 original size:2 final size:2
Alignment explanation
Indices: 10052601--10052627 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10052591 TGTGAATGTA
10052601 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10052628 AATGCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10055125 original size:31 final size:29
Alignment explanation
Indices: 10054937--10055130 Score: 101
Period size: 30 Copynumber: 6.4 Consensus size: 29
10054927 TTATGTATCT
* *
10054937 TTAACTTTAAAAAATATATTTTATTTTTATC
1 TTAACTTT-AAAAATATATTTTA-TATCATC
* * **
10054968 TTAA-TTTATTACATATATTTTATTATCAAA
1 TTAACTTTA-AAAATATATTTTA-TATCATC
* *
10054998 TTAA-ATTAAAATTATATATTTTAT-TCTTATT
1 TTAACTTTAAAA--ATATATTTTATATC--ATC
* * * * *
10055029 TTTA-TTTAAAAACATATTTTTTATTCTTG
1 TTAACTTTAAAAATATATTTTATA-TCATC
*
10055058 TCTAAC-TTAAAAATATATTTTATCTCATC
1 T-TAACTTTAAAAATATATTTTATATCATC
* *
10055087 TTAACTTTTAAAATATATTTTTATTATCATT
1 TTAACTTTAAAAATATA-TTTTA-TATCATC
10055118 TTAACTTTAAAAA
1 TTAACTTTAAAAA
10055131 ATGTATTGTA
Statistics
Matches: 124, Mismatches: 27, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
28 4 0.03
29 29 0.23
30 48 0.39
31 43 0.35
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.54
Consensus pattern (29 bp):
TTAACTTTAAAAATATATTTTATATCATC
Found at i:10055258 original size:31 final size:30
Alignment explanation
Indices: 10054932--10055371 Score: 250
Period size: 31 Copynumber: 14.6 Consensus size: 30
10054922 ATAATTTATG
*
10054932 TATCTTTAACTTTAAAAA-ATATATTTTATTTT
1 TATC-TTAAC-TTAAAAATATATA-TTTATTCT
* * * *
10054964 TATCTTAATTTATTACATATAT-TTTATTAT
1 TATCTTAACTTA-AAAATATATATTTATTCT
* ** * *
10054994 CAAATTAAATTAAAATTATATATTTTATTCT
1 TATCTTAACTTAAAAATATATA-TTTATTCT
* * * * *
10055025 TATTTTTATTTAAAAACATATTTTTTATTCT
1 TATCTTAACTTAAAAATATA-TATTTATTCT
*
10055056 TGTC-TAACTTAAAAATATAT-TTTA-TCT
1 TATCTTAACTTAAAAATATATATTTATTCT
* * * *
10055083 CATCTTAACTTTTAAAATATATTTTTATTAT
1 TATCTTAAC-TTAAAAATATATATTTATTCT
* * *
10055114 CATTTTAACTTTAAAAA-ATGTATTGTATTCT
1 TATCTTAAC-TTAAAAATATATATT-TATTCT
* * *
10055145 TA-CTTTAAATT---ATTAAATATTTATT-T
1 TATC-TTAACTTAAAAATATATATTTATTCT
* * *
10055171 ATATATTAACTTAAAAA-ATGT-TTTAATCT
1 -TATCTTAACTTAAAAATATATATTTATTCT
* * *
10055200 TATTTTAGCTTAAACAATATA-CTTTATTCT
1 TATCTTAACTTAAA-AATATATATTTATTCT
*
10055230 TATATTAACTTAAAAATATATATCTTATTCT
1 TATCTTAACTTAAAAATATATAT-TTATTCT
* *
10055261 TATTTTAACTTAAAATTATATATTTTATTCT
1 TATCTTAACTTAAAAATATATA-TTTATTCT
10055292 TATCTTAA-TATAAAAATATATATTTTATT-T
1 TATCTTAACT-TAAAAATATATA-TTTATTCT
*
10055322 TAATCTTAACTTGAAAAA-ACTATATTT-TTTT
1 T-ATCTTAACTT-AAAAATA-TATATTTATTCT
*
10055353 TATCTTAATTTAAAAATAT
1 TATCTTAACTTAAAAATAT
10055372 TTTTAATATA
Statistics
Matches: 319, Mismatches: 58, Indels: 65
0.72 0.13 0.15
Matches are distributed among these distances:
26 1 0.00
27 18 0.06
28 30 0.09
29 35 0.11
30 79 0.25
31 136 0.43
32 20 0.06
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (30 bp):
TATCTTAACTTAAAAATATATATTTATTCT
Found at i:10055415 original size:30 final size:30
Alignment explanation
Indices: 10055379--10055444 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
10055369 TATTTTTAAT
10055379 ATATATTTAATAAGTTAAAGTAAGAACAAA
1 ATATATTTAATAAGTTAAAGTAAGAACAAA
* *
10055409 ATATATTTAATAAGTTAATGTAAGAATAAA
1 ATATATTTAATAAGTTAAAGTAAGAACAAA
10055439 ATATAT
1 ATATAT
10055445 ATTTGGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.35
Consensus pattern (30 bp):
ATATATTTAATAAGTTAAAGTAAGAACAAA
Found at i:10055508 original size:31 final size:29
Alignment explanation
Indices: 10055460--10055585 Score: 116
Period size: 31 Copynumber: 4.3 Consensus size: 29
10055450 GAATATATTG
*
10055460 AAATTAAAAT-AAAATAAAATATATTTTTA
1 AAATTTAAATAAAAATAAAATATA-TTTTA
*
10055489 AAATTTAAGATAAAAATAAAATGTATTTT-
1 AAATTTAA-ATAAAAATAAAATATATTTTA
*
10055518 -AAGTTATAATAAAAATAAAATATATTTTTA
1 AAATTTA-AATAAAAATAAAATATA-TTTTA
* * *
10055548 AAAATTAAATTTAGAATAAAATATA-TTTA
1 AAATTTAAA-TAAAAATAAAATATATTTTA
10055577 ATAATTTAA
1 A-AATTTAA
10055586 GATAGAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
28 20 0.25
29 17 0.21
30 14 0.17
31 30 0.37
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATTTAAATAAAAATAAAATATATTTTA
Found at i:10060496 original size:15 final size:15
Alignment explanation
Indices: 10060476--10060514 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10060466 CTTATTTACT
10060476 TTATTTATTTT-CTCA
1 TTATTT-TTTTACTCA
*
10060491 TTATTTTTTTATTCA
1 TTATTTTTTTACTCA
10060506 TTATTTTTT
1 TTATTTTTT
10060515 ATATTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTTTACTCA
Found at i:10060519 original size:16 final size:15
Alignment explanation
Indices: 10060488--10060519 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10060478 ATTTATTTTC
10060488 TCATTATTTTTTTAT
1 TCATTATTTTTTTAT
10060503 TCATTATTTTTTATAT
1 TCATTATTTTTT-TAT
10060519 T
1 T
10060520 TTATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (15 bp):
TCATTATTTTTTTAT
Found at i:10060523 original size:14 final size:15
Alignment explanation
Indices: 10060490--10060535 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
10060480 TTATTTTCTC
10060490 ATTATTTTTT-TATT
1 ATTATTTTTTATATT
10060504 CATTATTTTTTATATT
1 -ATTATTTTTTATATT
*
10060520 -TTATATTTTAT-TT
1 ATTATTTTTTATATT
10060533 ATT
1 ATT
10060536 TTTAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 12 0.43
15 10 0.36
16 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTATTTTTTATATT
Found at i:10060526 original size:16 final size:15
Alignment explanation
Indices: 10060491--10060547 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
10060481 TATTTTCTCA
*
10060491 TTATTTTTT-TATTCA
1 TTATTTTTTATATT-T
10060506 TTATTTTTTATATTT
1 TTATTTTTTATATTT
10060521 TATATTTTATT-TATTT
1 T-TATTTT-TTATATTT
10060537 TTAATTTTTTA
1 TT-ATTTTTTA
10060548 AAATCCCCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 13 0.36
16 21 0.58
17 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTTTTTATATTT
Found at i:10066920 original size:56 final size:60
Alignment explanation
Indices: 10066822--10066958 Score: 176
Period size: 56 Copynumber: 2.4 Consensus size: 60
10066812 AAAACTTTTA
* * * *
10066822 TATTTAGGATTTTTAGTTTGATTATTTTATTATTATTATTTATTTATGAATTAATTATTT
1 TATTTAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
* *
10066882 TATTATAA-CTTTTTAGTTTGA-TATATTATTA-TA-T-TTTATATAGGAATTCATTATTT
1 TATT-TAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
10066938 TATTTAAGATTTTTAGTTTGA
1 TATTTAAGATTTTTAGTTTGA
10066959 GTCATTGTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 3 0.04
56 35 0.51
57 1 0.01
58 2 0.03
59 9 0.13
60 16 0.24
61 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (60 bp):
TATTTAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
Found at i:10068908 original size:3 final size:3
Alignment explanation
Indices: 10068900--10068932 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10068890 TATAATACAA
*
10068900 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10068933 TTAATAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10070332 original size:28 final size:27
Alignment explanation
Indices: 10070262--10070324 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
10070252 GATTGGGTAT
10070262 GATTTTTAGTTTTAAATGTTCTATGGA
1 GATTTTTAGTTTTAAATGTTCTATGGA
10070289 GATTTTTAGTTTTAAATGTTCTATGGA
1 GATTTTTAGTTTTAAATGTTCTATGGA
10070316 GATTTTTAG
1 GATTTTTAG
10070325 ATGTTAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
GATTTTTAGTTTTAAATGTTCTATGGA
Found at i:10071167 original size:57 final size:57
Alignment explanation
Indices: 10071075--10071187 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
10071065 CTAGGTGAAC
* * * *
10071075 ATGTTCTATGGGAATAAATGATAATTTGAATAATGTTATATGAAACACTATGAGTAT
1 ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAACACTATGAGTAT
**
10071132 ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAATGCTATGAGTA
1 ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAACACTATGAGTA
10071188 AATCATCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (57 bp):
ATGTTCTATAGGAATAAATGATAAGTTGAAAAATGTTACATGAAACACTATGAGTAT
Found at i:10071211 original size:15 final size:15
Alignment explanation
Indices: 10071193--10071264 Score: 83
Period size: 15 Copynumber: 4.8 Consensus size: 15
10071183 GAGTAAATCA
10071193 TCTATGTAAATATGT
1 TCTATGTAAATATGT
*
10071208 TCTACGTGAAAT-TGT
1 TCTATGT-AAATATGT
*
10071223 TCTATGTGAATATGT
1 TCTATGTAAATATGT
* *
10071238 TCTATGTAAATGTGG
1 TCTATGTAAATATGT
*
10071253 TCTATGTGAATA
1 TCTATGTAAATA
10071265 AAAGATAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
14 3 0.06
15 40 0.85
16 4 0.09
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (15 bp):
TCTATGTAAATATGT
Found at i:10071227 original size:30 final size:30
Alignment explanation
Indices: 10071193--10071264 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
10071183 GAGTAAATCA
* *
10071193 TCTATGTAAATATGTTCTACGTGAAAT-TGT
1 TCTATGTGAATATGTTCTACGT-AAATGTGG
*
10071223 TCTATGTGAATATGTTCTATGTAAATGTGG
1 TCTATGTGAATATGTTCTACGTAAATGTGG
10071253 TCTATGTGAATA
1 TCTATGTGAATA
10071265 AAAGATAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (30 bp):
TCTATGTGAATATGTTCTACGTAAATGTGG
Found at i:10076660 original size:56 final size:60
Alignment explanation
Indices: 10076562--10076698 Score: 176
Period size: 56 Copynumber: 2.4 Consensus size: 60
10076552 AAAACTTTTA
* * * *
10076562 TATTTAGGATTTTTAGTTTGATTATTTTATTATTATTATTTATTTATGAATTAATTATTT
1 TATTTAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
* *
10076622 TATTATAA-CTTTTTAGTTTGA-TATATTATTA-TA-T-TTTATATAGGAATTCATTATTT
1 TATT-TAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
10076678 TATTTAAGATTTTTAGTTTGA
1 TATTTAAGATTTTTAGTTTGA
10076699 GTCATTGTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 3 0.04
56 35 0.51
57 1 0.01
58 2 0.03
59 9 0.13
60 16 0.24
61 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (60 bp):
TATTTAAGATTTTTAGTTTGATTATATTATTATTATTATTTATATAGGAATTAATTATTT
Found at i:10079786 original size:162 final size:162
Alignment explanation
Indices: 10079517--10079829 Score: 554
Period size: 162 Copynumber: 1.9 Consensus size: 162
10079507 AAGCGCTATC
*
10079517 GGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
1 GGATATATTGAAACTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
* *
10079582 AGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGTATCGATCCACAATGATATAACAGG
66 AGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGG
10079647 TAAAAATATGAAAAAACCGGTATAGAGCGACT
131 TAAAAATATGAAAAAACCGGTATAGAGCGACT
* **
10079679 GGATATATTGAATCTGTTTATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
1 GGATATATTGAAACTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
10079744 AGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGG
66 AGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGG
* *
10079809 TGAAAATATGACAAAACCGGT
131 TAAAAATATGAAAAAACCGGT
10079830 CTCTAAAGGA
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 143 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (162 bp):
GGATATATTGAAACTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
AGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGG
TAAAAATATGAAAAAACCGGTATAGAGCGACT
Found at i:10080498 original size:19 final size:19
Alignment explanation
Indices: 10080437--10080508 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
10080427 GACCGATTAT
10080437 ATAATATTATAGGTAGAAA
1 ATAATATTATAGGTAGAAA
* * *
10080456 ATAAATATGGATA--TATGTAT
1 AT-AATAT-TATAGGTA-GAAA
10080476 ATAATATTATAGGTAGAAA
1 ATAATATTATAGGTAGAAA
*
10080495 ATAATATTTTAGGT
1 ATAATATTATAGGT
10080509 TGTATAAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
18 3 0.07
19 24 0.59
20 11 0.27
21 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
ATAATATTATAGGTAGAAA
Found at i:10082292 original size:21 final size:21
Alignment explanation
Indices: 10082268--10082311 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10082258 AAGACAATCA
10082268 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
10082289 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
10082310 AG
1 AG
10082312 GCATAAGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:10082387 original size:33 final size:33
Alignment explanation
Indices: 10082345--10082411 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
10082335 AAATAGAAGG
* *
10082345 AGTGCTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGCTGAAACAAGTTGAGGTGTTAAGGGGTGA
*
10082378 AGTGGTGAAACAAGTTGAGGTGTTAAGGGGTGA
1 AGTGCTGAAACAAGTTGAGGTGTTAAGGGGTGA
10082411 A
1 A
10082412 CTTAAGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.43, T:0.24
Consensus pattern (33 bp):
AGTGCTGAAACAAGTTGAGGTGTTAAGGGGTGA
Found at i:10082614 original size:18 final size:18
Alignment explanation
Indices: 10082593--10082629 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10082583 CTGAAAAAAT
*
10082593 ATGATGAAGAAAAGATGG
1 ATGAAGAAGAAAAGATGG
10082611 ATGAAGAAGAAAAGATGG
1 ATGAAGAAGAAAAGATGG
10082629 A
1 A
10082630 GGAAATGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (18 bp):
ATGAAGAAGAAAAGATGG
Found at i:10084197 original size:19 final size:19
Alignment explanation
Indices: 10084173--10084221 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
10084163 AATGTAGGGT
10084173 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
10084192 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
10084211 TAATTTTGTAT
1 TAATTTTGTAT
10084222 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:10084553 original size:15 final size:15
Alignment explanation
Indices: 10084533--10084571 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
10084523 GTCCAGTATG
10084533 GTTCCCAAACGTAAA
1 GTTCCCAAACGTAAA
10084548 GTTCCCAAACGTAAA
1 GTTCCCAAACGTAAA
*
10084563 GTTTCCAAA
1 GTTCCCAAA
10084572 AAATAGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
GTTCCCAAACGTAAA
Found at i:10085522 original size:202 final size:200
Alignment explanation
Indices: 10084588--10085748 Score: 1555
Period size: 199 Copynumber: 5.8 Consensus size: 200
10084578 GTAAGCAGAT
* *
10084588 GTGTCGATGCATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
10084653 GGTAATTTTGT-AATATAACCAGTATAAATATACCGATTTTATGTGAGAATAGTTCTACATAATG
66 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
* * * *
10084717 TATCGACACTTTTGAAATTGGTGTCGATATTTTTTGTCCATAATGAATGCCCAAAATGGTGAACG
130 TATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACG
10084782 CATAAA
195 CATAAA
* *
10084788 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
** * *
10084852 GGTAATTTTGT-AATGTAACAAGTATAAATATACCAGTTTTATGTGAGGATAGGTCTACATAATG
66 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
* * * *
10084916 TATCGACACTTTTTAATTTTGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAATGGTGC
130 TATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGC
10084981 ACGCATAAA
192 ACGCATAAA
* *
10084990 GTGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
10085055 GATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * *
10085120 ATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGC
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
10085185 ATAAA
196 ATAAA
* * * *
10085190 GTGTCGATACATTTTTAAAAAGTGTCAATCCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
10085254 GGTAATTTTTTAATGTAATCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * * *
10085319 ATCGATACTTTTTAATTTTGTATCGATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCA
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGCA
10085384 CGCATAAA
193 CGCATAAA
* *
10085392 GTGTCGATACATTTATAAAAAGTATCGAT-CCAGAAATATCGAAACCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
10085456 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGCGAGAATAGGTCTAGAAAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * * * * * *
10085521 ATCGGCACTTATGGAATTTGTGTCAATACTTTTTGTCTAGAAGGAATG-CCAAAAGGGTGCACCC
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
*
10085585 ATTAA
196 ATAAA
* * * ** * *
10085590 GAGTTGATACATTTTTAAAAAGTGCCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** * * *
10085655 GGTAAATTTTCAATGTAACCGGTATAAATATACTAGTTTTATGAGAAAATAGGTC-AGCATAAAG
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTA-CATAATG
* *
10085719 TATCAACAATTGTT-AAATTTGTGTCGATAC
130 TATCGACACTT-TTGAAATTTGTGTCGATAC
10085749 CATTTTAAAA
Statistics
Matches: 844, Mismatches: 105, Indels: 25
0.87 0.11 0.03
Matches are distributed among these distances:
198 41 0.05
199 356 0.42
200 94 0.11
201 12 0.01
202 219 0.26
203 122 0.14
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
ATAAA
Found at i:10085680 original size:401 final size:401
Alignment explanation
Indices: 10084588--10085755 Score: 1761
Period size: 402 Copynumber: 2.9 Consensus size: 401
10084578 GTAAGCAGAT
* * *
10084588 GTGTCGATGCATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
* * * *
10084653 GGTAATTTTGT-AATATAACCAGTATAAATATACCGATTTTATGTGAGAATAGTTCTACATAATG
66 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
*
10084717 TATCGACACTTTTGAAATTGGTGTCGATATTTTTTGTCCATAATGAATGCCCAAAATGGTGAACG
130 TATCGACAC-TTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACG
*
10084782 CATAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATG
194 CATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATG
** * *
10084847 TAATAGGT-AATTTTGTAATGTAACAAGTATAAATATACCAGTTTTATGTGAGGATAGGTCTACA
259 TAATAGGTAAATTTT-TAATGTAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACA
10084911 TAATGTATCGACACTTTTTAATTTTGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAAT
323 TAATGTATCGACACTTTTTAATTTTGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAAT
10084976 GGTGCACGCATAAA
388 GGTGCACGCATAAA
*
10084990 GTGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
* *
10085055 GATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
10085120 ATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGC
131 ATCGACAC-TTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGC
*
10085185 ATAAAGTGTCGATACATTTTTAAAAAGTGTCAATCCCAGAGACATCGAACCCATAATTATAATGT
195 ATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGT
* * *
10085250 AATAGGTAATTTTTTAATGTAATCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATA
260 AATAGGTAAATTTTTAATGTAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACATA
* * *
10085315 ATGTATCGATACTTTTTAATTTTGTATCGATACATTTTGTCCAGAATGAATGCCCAAAAAAATGG
325 ATGTATCGACACTTTTTAATTTTGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAATGG
10085380 TGCACGCATAAA
390 TGCACGCATAAA
*
10085392 GTGTCGATACATTTATAAAAAGTATCGAT-CCAGAAATATCGAAACCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
* * *
10085456 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGCGAGAATAGGTCTAGAAAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * * * * * * * *
10085521 ATCGGCACTTATGGAATTTGTGTCAATACTTTTTGTCTAGAAGGAATG-CCAAAAGGGTGCACCC
131 ATCGACACTT-TGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGC
* * * * * * *
10085585 ATTAAGAGTTGATACATTTTTAAAAAGTGCCGATCCCAAAAACATCGAAACCGATAATTATAATG
195 ATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATG
* * *
10085650 TAATAGGTAAATTTTCAATGTAACCGGTATAAATATACTAGTTTTATGAGAAAATAGGTC-AGCA
259 TAATAGGTAAATTTTTAATGTAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTA-CA
* * * * *
10085714 TAAAGTATCAACAATTGTTAAATTTGTGTCGATACCATTTTA
323 TAATGTATCGACACTTTTTAATTTTGTGTCGATA-CATTTTA
10085756 AAAATCGCAT
Statistics
Matches: 697, Mismatches: 63, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
400 56 0.08
401 232 0.33
402 404 0.58
403 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (401 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGCA
TAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTA
ATAGGTAAATTTTTAATGTAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACATAA
TGTATCGACACTTTTTAATTTTGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAATGGT
GCACGCATAAA
Found at i:10087265 original size:6 final size:6
Alignment explanation
Indices: 10087225--10087277 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
10087215 CAAGAGGTCA
* * * * *
10087225 ATGAAG ATGAAG ATGACG ATGAAG ATGATG ATGATG ATGATG ATTATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
10087273 ATGAT
1 ATGAT
10087278 CCAAACAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (6 bp):
ATGATG
Found at i:10088612 original size:18 final size:18
Alignment explanation
Indices: 10088591--10088627 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10088581 GTAATTGGAG
10088591 TTTGAATTTCAATTTCAA
1 TTTGAATTTCAATTTCAA
* *
10088609 TTTGAGTTTGAATTTCAA
1 TTTGAATTTCAATTTCAA
10088627 T
1 T
10088628 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTCAATTTCAA
Found at i:10088634 original size:24 final size:24
Alignment explanation
Indices: 10088583--10088635 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
10088573 TTTTATGTGT
* * *
10088583 AATTGGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATA
10088607 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTCAATATA
10088631 AATTT
1 AATTT
10088636 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATA
Found at i:10089376 original size:200 final size:199
Alignment explanation
Indices: 10088863--10089631 Score: 958
Period size: 200 Copynumber: 3.8 Consensus size: 199
10088853 TAAAGTTTCC
*
10088863 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCAAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAA-
* ** * * *
10088928 TGTAATAGGTAAATTTACAATGTGACTGGTATAAATATATCGATTTTATGAGCAAATAGGTCAGC
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
* * * * ** * * *
10088993 ATAAAGTATCGACACCTTTTAAATTTGTTTCGATACTTTTTTTCCGAGCCT--TTTCTC-AACGA
130 ATAATGTATCGACA-CTTTTAAATTTGTGTCGATACATTTTGTCC-AGAATGAATGC-CAAACGG
* *
10089055 GCTTCACG
192 GGTGCACG
** *
10089063 CATAAAAGTGTCGATACATTTA-AAATTGTATCGATCCAAAAAACATCGAAATCGAAAATTATAA
1 CAT-AAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAA
*
10089127 TGTAATAGGTAAATATACAATGTAACCAGTATAAATATACC-AGTTTTATGAGAAAATAGGT-AT
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGA-TTTTATGAGAAAATAGGTCA-
*
10089190 ACATAATGTATCGACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACGG
128 ACATAATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGG
*
10089255 GGTGCATG
192 GGTGCACG
* * * * *
10089263 CATAAAGTGTTGATATATTTTTAAAAAGTATCGATCTC-AAAAACATCGAAACCGATAATTTTAA
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATC-CAAAAAACATCGAAACCGAAAATTATAA
* * * * *
10089327 TGTAATAGGTAAATTTACAATGTAACCAATATAAGTATACCGATTTTATGAGATAATATGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
* *
10089392 ATAATGTATCGACACTTTTTAGATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAACGGGG
130 ATAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGGG
*
10089457 TGAACG
194 TGCACG
* * *
10089463 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATTGAAACCTAACATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
** * * * *
10089528 GTAATAGGTAAATTTACAATGTAACTGGTGTAAATATACCGGTTTTATGAGAAAATATGTTAACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
* * *
10089593 TAGTGTATCGACACTTTTAAATTTGTGTCAATACGTTTT
131 TAATGTATCGACACTTTTAAATTTGTGTCGATACATTTT
10089632 TAAATTACGC
Statistics
Matches: 494, Mismatches: 62, Indels: 27
0.85 0.11 0.05
Matches are distributed among these distances:
198 6 0.01
199 131 0.27
200 335 0.68
201 22 0.04
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
TAATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGGGTG
CACG
Found at i:10093614 original size:200 final size:197
Alignment explanation
Indices: 10093271--10093777 Score: 669
Period size: 200 Copynumber: 2.5 Consensus size: 197
10093261 TGTCCAGAAT
*
10093271 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAATAACATTGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAATTATCGATCCCAA-AACATTGAAACCGATAATTATAATG
* * ** *
10093336 TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATAAGATAACAGGTCAGTAT
65 TAATAGGTAAATTTACAATGT-ACCGGTATAAATATACCGGTTTTATAAGAAAACAAATCAGAAT
* *
10093401 AAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCAAACGGGGTG
129 AAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTT-TCCAGAATGAATGCCAAACGAGGTG
10093466 CACGC
193 CACGC
* ** * *
10093471 ATAAAGTGTCGACACATTTATTAAAATTATCGATCCCACAAACATCAAAACCGATAATTACATTG
1 ATAAAGTGTCGATACATTTATTAAAATTATCGATCCCA-AAACATTGAAACCGATAATTATAATG
* * * * *
10093536 TGATAGGTAAATTTACAATGTACCCGATAGAAATATACCGGTTTTATGAGAAAATAAATCTA-AA
65 TAATAGGTAAATTTACAATGTA-CCGGTATAAATATACCGGTTTTATAAGAAAACAAATC-AGAA
* * * *
10093600 TAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTG
128 TAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGTG
*
10093665 CATGC
193 CACGC
* * *
10093670 ATCAAGTGTCGATACATTTA--AAATTGTATCGATCCAAAAAACATTGAAACCGATAATTATAAT
1 ATAAAGTGTCGATACATTTATTAAAAT-TATCGATCC-CAAAACATTGAAACCGATAATTATAAT
*
10093733 GTAATAGGTAAATTTGCAATGTTACCGGTATAAATATACCGGTTT
64 GTAATAGGTAAATTTACAATG-TACCGGTATAAATATACCGGTTT
10093778 ACTTAGAAAA
Statistics
Matches: 266, Mismatches: 35, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
197 4 0.02
198 68 0.26
199 48 0.18
200 144 0.54
201 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAACATTGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTACCGGTATAAATATACCGGTTTTATAAGAAAACAAATCAGAATAA
AGTATCGACACTATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGTGCAC
GC
Found at i:10093830 original size:23 final size:23
Alignment explanation
Indices: 10093795--10093842 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10093785 AAATAGGTCA
* *
10093795 ATATAAGCGCTACCTATTATATT
1 ATATAAACGCTACCTAATATATT
* *
10093818 ATATAAACTCTACCTAATATGTT
1 ATATAAACGCTACCTAATATATT
10093841 AT
1 AT
10093843 TGTACTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (23 bp):
ATATAAACGCTACCTAATATATT
Found at i:10097458 original size:7 final size:7
Alignment explanation
Indices: 10097446--10097529 Score: 168
Period size: 7 Copynumber: 12.0 Consensus size: 7
10097436 TTTAGATAAG
10097446 GGAAGAA
1 GGAAGAA
10097453 GGAAGAA
1 GGAAGAA
10097460 GGAAGAA
1 GGAAGAA
10097467 GGAAGAA
1 GGAAGAA
10097474 GGAAGAA
1 GGAAGAA
10097481 GGAAGAA
1 GGAAGAA
10097488 GGAAGAA
1 GGAAGAA
10097495 GGAAGAA
1 GGAAGAA
10097502 GGAAGAA
1 GGAAGAA
10097509 GGAAGAA
1 GGAAGAA
10097516 GGAAGAA
1 GGAAGAA
10097523 GGAAGAA
1 GGAAGAA
10097530 CAGGGTAGGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 77 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GGAAGAA
Found at i:10104579 original size:16 final size:16
Alignment explanation
Indices: 10104558--10104603 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 16
10104548 TACACCTATG
10104558 AGTGTATCTATACACT
1 AGTGTATCTATACACT
10104574 AGTGTATCGATATACACT
1 AGTGTATC--TATACACT
10104592 AGTGTATCTATA
1 AGTGTATCTATA
10104604 TACCCTGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.43
18 16 0.57
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (16 bp):
AGTGTATCTATACACT
Found at i:10106273 original size:13 final size:13
Alignment explanation
Indices: 10106255--10106283 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10106245 AAAAGGCATA
10106255 TCAAATATGAATG
1 TCAAATATGAATG
10106268 TCAAATATGAATG
1 TCAAATATGAATG
10106281 TCA
1 TCA
10106284 TCTTCTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (13 bp):
TCAAATATGAATG
Found at i:10108019 original size:25 final size:20
Alignment explanation
Indices: 10107957--10108066 Score: 129
Period size: 20 Copynumber: 5.7 Consensus size: 20
10107947 GTGTCAAAGG
*
10107957 GTATCCATACACCATGTAGT
1 GTATCCATACACCCTGTAGT
10107977 GTATCCATACACCCTGTAGT
1 GTATCCATACACCCTGTAGT
*
10107997 GTATCCATACACCCTGCAGT
1 GTATCCATACACCCTGTAGT
10108017 GTATCCATACA--C--TAGT
1 GTATCCATACACCCTGTAGT
* * **
10108033 GTATCAATACAACCTACAGGT
1 GTATCCATACACCCTGTA-GT
10108054 GTATCCATACACC
1 GTATCCATACACC
10108067 TATGACTGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
16 13 0.17
18 2 0.03
20 50 0.64
21 13 0.17
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (20 bp):
GTATCCATACACCCTGTAGT
Found at i:10108127 original size:20 final size:18
Alignment explanation
Indices: 10108113--10108166 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 18
10108103 GATACACCTA
10108113 TGAGTGTATCCATACA-C
1 TGAGTGTATCCATACACC
*
10108130 T-AGTGTATCGATACACCC
1 TGAGTGTATCCATACA-CC
*
10108148 TGTAGTGTATTCATACACC
1 TG-AGTGTATCCATACACC
10108167 CTAGCTGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 13 0.43
17 1 0.03
18 2 0.07
19 2 0.07
20 12 0.40
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAGTGTATCCATACACC
Done.